Roland Nilsson

Publikationer
Populärvetenskap och samverkan

Artiklar

Article: PLOS COMPUTATIONAL BIOLOGY. 2022;18(4):e1009999

Validation-based model selection for 13C metabolic flux analysis with uncertain measurement errors.

Sundqvist N; Grankvist N; Watrous J; Mohit J; Nilsson R; Cedersund G
Article: JOURNAL OF IMMUNOLOGY. 2021;206(6):1181-1193

Functional Analysis of Immune Signature Genes in Th1* Memory Cells Links ISOC1 and Pyrimidine Metabolism to IFN-γ and IL-17 Production.

Kushnareva Y; Mathews IT; Andreyev AY; Altay G; Lindestam Arlehamn CS; Pandurangan V; Nilsson R; Jain M; Sette A; Peters B; Sharma S
Article: ISCIENCE. 2021;24(2):102128

Inhibition of fatty acid synthesis induces differentiation and reduces tumor burden in childhood neuroblastoma.

Ruiz-Pérez MV; Sainero-Alcolado L; Oliynyk G; Matuschek I; Balboni N; Ubhayasekera SJKA; Snaebjornsson MT; Makowski K; Aaltonen K; Bexell D; Serra D; Nilsson R; Bergquist J; Schulze A; Arsenian-Henriksson M
Article: SCIENCE ADVANCES. 2021;7(8):eabf0717

The one-carbon pool controls mitochondrial energy metabolism via complex I and iron-sulfur clusters.

Rosenberger FA; Moore D; Atanassov I; Moedas MF; Clemente P; Végvári Á; Fissi NE; Filograna R; Bucher A-L; Hinze Y; The M; Hedman E; Chernogubova E; Begzati A; Wibom R; Jain M; Nilsson R; Käll L; Wedell A; Freyer C; Wredenberg A
Article: MATHEMATICAL BIOSCIENCES. 2020;330:108481

Validity of natural isotope abundance correction for metabolic flux analysis.

Nilsson R
Article: METABOLOMICS. 2020;16(12):125

Mapping choline metabolites in normal and transformed cells.

Roci I; Watrous JD; Lagerborg KA; Jain M; Nilsson R
Article: CELL CYCLE. 2020;19(20):2676-2684

Mapping metabolic oscillations during cell cycle progression.

Roci I; Watrous JD; Lagerborg KA; Jain M; Nilsson R
Article: NATURE COMMUNICATIONS. 2020;11(1):4866

Yeast homologs of human MCUR1 regulate mitochondrial proline metabolism.

Zulkifli M; Neff JK; Timbalia SA; Garza NM; Chen Y; Watrous JD; Murgia M; Trivedi PP; Anderson SK; Tomar D; Nilsson R; Madesh M; Jain M; Gohil VM
Article: SCIENCE ADVANCES. 2020;6(30):eaba3688

Cellular sensing of extracellular purine nucleosides triggers an innate IFN-β response.

Dhanwani R; Takahashi M; Mathews IT; Lenzi C; Romanov A; Watrous JD; Pieters B; Hedrick CC; Benedict CA; Linden J; Nilsson R; Jain M; Sharma S
Article: METHODS IN MOLECULAR BIOLOGY. 2020;2088:73-92

Large-Scale Profiling of Cellular Metabolic Activities Using Deep 13C Labeling Medium.

Grankvist N; Watrous JD; Jain M; Nilsson R
Article: ISCIENCE. 2019;21:188-204

MYCN-enhanced Oxidative and Glycolytic Metabolism Reveals Vulnerabilities for Targeting Neuroblastoma.

Oliynyk G; Ruiz-Pérez MV; Sainero-Alcolado L; Dzieran J; Zirath H; Gallart-Ayala H; Wheelock CE; Johansson HJ; Nilsson R; Lehtiö J; Arsenian-Henriksson M
Article: GENE. 2019;716:144032

Mitochondrial MTHFD isozymes display distinct expression, regulation, and association with cancer.

Nilsson R; Nicolaidou V; Koufaris C
Article: CELL REPORTS. 2019;26(7):1691-1700.e5

Mapping Metabolic Events in the Cancer Cell Cycle Reveals Arginine Catabolism in the Committed SG2M Phase.

Roci I; Watrous JD; Lagerborg KA; Lafranchi L; Lindqvist A; Jain M; Nilsson R
Article: BIOCHEMISTRY. 2018;57(49):6762-6766

Gabapentin Can Suppress Cell Proliferation Independent of the Cytosolic Branched-Chain Amino Acid Transferase 1 (BCAT1).

Grankvist N; Lagerborg KA; Jain M; Nilsson R
Article: CELL CHEMICAL BIOLOGY. 2018;25(11):1419-1427.e4

Profiling the Metabolism of Human Cells by Deep 13C Labeling.

Grankvist N; Watrous JD; Lagerborg KA; Lyutvinskiy Y; Jain M; Nilsson R
Article: CELL DEATH & DISEASE. 2018;9(9):846

Metabolic reprogramming of acute lymphoblastic leukemia cells in response to glucocorticoid treatment.

Dyczynski M; Vesterlund M; Björklund A-C; Zachariadis V; Janssen J; Gallart-Ayala H; Daskalaki E; Wheelock CE; Lehtiö J; Grandér D; Tamm KP; Nilsson R
Article: CANCER & METABOLISM. 2018;6:12

Protein interaction and functional data indicate MTHFD2 involvement in RNA processing and translation.

Koufaris C; Nilsson R
Article: METABOLIC ENGINEERING. 2017;43(Pt B):137-146

Estimation of flux ratios without uptake or release data: Application to serine and methionine metabolism.

Nilsson R; Roci I; Watrous J; Jain M
Article: ANALYTICAL CHEMISTRY. 2017;89(11):5713-5718

A Web Service Framework for Interactive Analysis of Metabolomics Data.

Lyutvinskiy Y; Watrous JD; Jain M; Nilsson R
Article: JOVE-JOURNAL OF VISUALIZED EXPERIMENTS. 2017;(120)

A Method for Measuring Metabolism in Sorted Subpopulations of Complex Cell Communities Using Stable Isotope Tracing.

Roci I; Gallart-Ayala H; Watrous J; Jain M; Wheelock CE; Nilsson R
Article: MOLECULAR BIOSYSTEMS. 2016;12(6):1929-1937

Simultaneous tracing of carbon and nitrogen isotopes in human cells.

Nilsson R; Jain M
Article: ANALYTICAL CHEMISTRY. 2016;88(5):2707-2713

Metabolite Profiling and Stable Isotope Tracing in Sorted Subpopulations of Mammalian Cells.

Roci I; Gallart-Ayala H; Schmidt A; Watrous J; Jain M; Wheelock CE; Nilsson R
Article: SCIENTIFIC REPORTS. 2015;5:15029

The folate-coupled enzyme MTHFD2 is a nuclear protein and promotes cell proliferation.

Gustafsson Sheppard N; Jarl L; Mahadessian D; Strittmatter L; Schmidt A; Madhusudan N; Tegnér J; Lundberg EK; Asplund A; Jain M; Nilsson R
Article: AMERICAN JOURNAL OF PHYSIOLOGY-ENDOCRINOLOGY AND METABOLISM. 2014;306(8):E854-E868

A systematic survey of lipids across mouse tissues.

Jain M; Ngoy S; Sheth SA; Swanson RA; Rhee EP; Liao R; Clish CB; Mootha VK; Nilsson R
Article: NATURE COMMUNICATIONS. 2014;5:3128

Metabolic enzyme expression highlights a key role for MTHFD2 and the mitochondrial folate pathway in cancer.

Nilsson R; Jain M; Madhusudhan N; Sheppard NG; Strittmatter L; Kampf C; Huang J; Asplund A; Mootha VK
Article: NATURE. 2013;499(7457):238-242

An siRNA screen for NFAT activation identifies septins as coordinators of store-operated Ca2+ entry.

Sharma S; Quintana A; Findlay GM; Mettlen M; Baust B; Jain M; Nilsson R; Rao A; Hogan PG
Article: JOURNAL OF MOLECULAR MEDICINE-JMM. 2013;91(1):129-139

Identification of a novel flow-mediated gene expression signature in patients with bicuspid aortic valve.

Maleki S; Björck HM; Folkersen L; Nilsson R; Renner J; Caidahl K; Franco-Cereceda A; Länne T; Eriksson P
Article: SCIENCE. 2012;336(6084):1040-1044

Metabolite profiling identifies a key role for glycine in rapid cancer cell proliferation.

Jain M; Nilsson R; Sharma S; Madhusudhan N; Kitami T; Souza AL; Kafri R; Kirschner MW; Clish CB; Mootha VK
Article: IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE. 2010;32(8):1517-1522

On the complexity of discrete feature selection for optimal classification.

Peña JM; Nilsson R
Article: JOURNAL OF BIOLOGICAL CHEMISTRY. 2010;285(18):13742-13747

Mitochondrial and nuclear genomic responses to loss of LRPPRC expression.

Gohil VM; Nilsson R; Belcher-Timme CA; Luo B; Root DE; Mootha VK
Article: NATURE BIOTECHNOLOGY. 2010;28(3):249-255

Nutrient-sensitized screening for drugs that shift energy metabolism from mitochondrial respiration to glycolysis.

Gohil VM; Sheth SA; Nilsson R; Wojtovich AP; Lee JH; Perocchi F; Chen W; Clish CB; Ayata C; Brookes PS; Mootha VK
Article: PLOS GENETICS. 2009;5(12):e1000754

Multi-organ expression profiling uncovers a gene module in coronary artery disease involving transendothelial migration of leukocytes and LIM domain binding 2: the Stockholm Atherosclerosis Gene Expression (STAGE) study.

Hägg S; Skogsberg J; Lundström J; Noori P; Nilsson R; Zhong H; Maleki S; Shang M-M; Brinne B; Bradshaw M; Bajic VB; Samnegård A; Silveira A; Kaplan LM; Gigante B; Leander K; de Faire U; Rosfors S; Lockowandt U; Liska J; Konrad P; Takolander R; Franco-Cereceda A; Schadt EE; Ivert T; Hamsten A; Tegnér J; Björkegren J
Article: PLOS GENETICS. 2009;5(8):e1000590

A computational screen for regulators of oxidative phosphorylation implicates SLIRP in mitochondrial RNA homeostasis.

Baughman JM; Nilsson R; Gohil VM; Arlow DH; Gauhar Z; Mootha VK
Article: CELL METABOLISM. 2009;10(2):119-130

Discovery of genes essential for heme biosynthesis through large-scale gene expression analysis.

Nilsson R; Schultz IJ; Pierce EL; Soltis KA; Naranuntarat A; Ward DM; Baughman JM; Paradkar PN; Kingsley PD; Culotta VC; Kaplan J; Palis J; Paw BH; Mootha VK
Article: BMC BIOINFORMATICS. 2009;10:38

On reliable discovery of molecular signatures.

Nilsson R; Björkegren J; Tegnér J
Article: JOURNAL OF MACHINE LEARNING RESEARCH. 2009;10:1071-1094

An Algorithm for Reading Dependencies from the Minimal Undirected Independence Map of a Graphoid that Satisfies Weak Transitivity

Pena JM; Nilsson R; Bjorkegren J; Tegner J
Article: PLOS GENETICS. 2008;4(3):e1000036

Transcriptional profiling uncovers a network of cholesterol-responsive atherosclerosis target genes.

Skogsberg J; Lundström J; Kovacs A; Nilsson R; Noori P; Maleki S; Köhler M; Hamsten A; Tegnér J; Björkegren J
Article: PLOS ONE. 2008;3(11):e3771

ApoB100-LDL acts as a metabolic signal from liver to peripheral fat causing inhibition of lipolysis in adipocytes.

Skogsberg J; Dicker A; Rydén M; Aström G; Nilsson R; Bhuiyan H; Vitols S; Mairal A; Langin D; Alberts P; Walum E; Tegnér J; Hamsten A; Arner P; Björkegren J
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2007;104(34):13768-13773

Human C-reactive protein slows atherosclerosis development in a mouse model with human-like hypercholesterolemia.

Kovacs A; Tornvall P; Nilsson R; Tegnér J; Hamsten A; Björkegren J
Article: BMC BIOINFORMATICS. 2007;8:150

Detecting multivariate differentially expressed genes.

Nilsson R; Peña JM; Björkegren J; Tegnér J
Article: JOURNAL OF MACHINE LEARNING RESEARCH. 2007;8:589-612

Consistent feature selection for pattern recognition in polynomial time

Nilsson R; Pena JM; Bjorkegren J
Article: GENOMICS. 2006;88(2):133-142

Transcriptional network dynamics in macrophage activation.

Nilsson R; Bajic VB; Suzuki H; di Bernardo D; Björkegren J; Katayama S; Reid JF; Sweet MJ; Gariboldi M; Carninci P; Hayashizaki Y; Hume DA; Tegner J; Ravasi T
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Editorial comment: NATURE METABOLISM. 2022;4(9):1089-1090

Zooming in on kidney metabolism.

Nilsson R
Published paper: INTERNATIONAL JOURNAL OF APPROXIMATE REASONING. 2007;45(2):211-232

Towards scalable and data efficient learning of Markov boundaries

Pena JM; Nilsson R; Bjorkegren J; Tegner J
Published paper: CELLULAR IMMUNOLOGY. 2006;244(2):105-109

Systems biology of innate immunity.

Tegnér J; Nilsson R; Bajic VB; Björkegren J; Ravasi T
Published paper: LECTURE NOTES IN COMPUTER SCIENCE. 2006;4212:719-726

Evaluating feature selection for SVMs in high dimensions

Nilsson R; Pena JM; Bjoerkegren J; Tegner J

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